HEADER HYDROLASE 18-JAN-16 5HNH TITLE CRYSTAL STRUCTURE OF PYRENE- AND PHENANTHRENE-MODIFIED DNA IN COMPLEX TITLE 2 WITH THE BPUJ1 ENDONUCLEASE BINDING DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: RESTRICTION ENDONUCLEASE R.BPUJI; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: DNA (5'-D(*GP*(YPY)P*AP*CP*CP*CP*GP*TP*GP*GP*A)-3'); COMPND 7 CHAIN: L; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: DNA (5'-D(*TP*CP*CP*AP*CP*GP*GP*GP*T*(YPY)*(YPY)*C)-3'); COMPND 11 CHAIN: M; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS PUMILUS; SOURCE 3 ORGANISM_TAXID: 1408; SOURCE 4 GENE: BPUJIR; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630 KEYWDS PHENANTHRENE, PYRENE, DNA, ENDONUCLEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.PROBST,W.AESCHIMANN,T.-T.-H.CHAU,S.M.LANGENEGGER,A.STOCKER,R.HAENER REVDAT 3 10-JAN-24 5HNH 1 REMARK REVDAT 2 14-SEP-16 5HNH 1 JRNL REVDAT 1 17-AUG-16 5HNH 0 JRNL AUTH M.PROBST,W.AESCHIMANN,T.T.CHAU,S.M.LANGENEGGER,A.STOCKER, JRNL AUTH 2 R.HANER JRNL TITL STRUCTURAL INSIGHT INTO DNA-ASSEMBLED OLIGOCHROMOPHORES: JRNL TITL 2 CRYSTALLOGRAPHIC ANALYSIS OF PYRENE- AND JRNL TITL 3 PHENANTHRENE-MODIFIED DNA IN COMPLEX WITH BPUJI JRNL TITL 4 ENDONUCLEASE. JRNL REF NUCLEIC ACIDS RES. V. 44 7079 2016 JRNL REFN ESSN 1362-4962 JRNL PMID 27422870 JRNL DOI 10.1093/NAR/GKW644 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.29 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.300 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.6 REMARK 3 NUMBER OF REFLECTIONS : 35452 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 3200 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 48.3026 - 5.3341 0.96 2719 142 0.1389 0.1491 REMARK 3 2 5.3341 - 4.2346 0.88 2481 132 0.1237 0.1529 REMARK 3 3 4.2346 - 3.6996 0.95 2640 142 0.1350 0.1452 REMARK 3 4 3.6996 - 3.3614 0.97 2758 138 0.1498 0.1838 REMARK 3 5 3.3614 - 3.1205 0.97 2727 147 0.1629 0.2082 REMARK 3 6 3.1205 - 2.9366 0.98 2783 149 0.1823 0.1963 REMARK 3 7 2.9366 - 2.7895 0.98 2785 147 0.1896 0.2650 REMARK 3 8 2.7895 - 2.6681 0.96 2700 144 0.1874 0.2395 REMARK 3 9 2.6681 - 2.5654 0.92 2583 136 0.1812 0.2138 REMARK 3 10 2.5654 - 2.4769 0.92 2577 133 0.1789 0.1873 REMARK 3 11 2.4769 - 2.3994 0.94 2687 136 0.1751 0.2360 REMARK 3 12 2.3994 - 2.3308 0.95 2663 140 0.1820 0.2452 REMARK 3 13 2.3308 - 2.2695 0.96 2756 141 0.1797 0.2167 REMARK 3 14 2.2695 - 2.2141 0.96 2675 144 0.1808 0.2471 REMARK 3 15 2.2141 - 2.1638 0.97 2766 150 0.1931 0.2225 REMARK 3 16 2.1638 - 2.1177 0.96 2689 146 0.1995 0.2011 REMARK 3 17 2.1177 - 2.0754 0.96 2745 144 0.2192 0.2588 REMARK 3 18 2.0754 - 2.0362 0.96 2730 142 0.2312 0.2422 REMARK 3 19 2.0362 - 1.9998 0.97 2711 145 0.2352 0.2668 REMARK 3 20 1.9998 - 1.9659 0.97 2831 142 0.2736 0.3032 REMARK 3 21 1.9659 - 1.9342 0.97 2687 136 0.2983 0.3204 REMARK 3 22 1.9342 - 1.9045 0.96 2713 146 0.3157 0.3603 REMARK 3 23 1.9045 - 1.8765 0.53 1520 78 0.3360 0.3798 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.230 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.840 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 2880 REMARK 3 ANGLE : 1.028 3969 REMARK 3 CHIRALITY : 0.044 416 REMARK 3 PLANARITY : 0.005 439 REMARK 3 DIHEDRAL : 18.521 1096 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 2 THROUGH 101 ) REMARK 3 ORIGIN FOR THE GROUP (A): -0.4221 19.2423 -29.0619 REMARK 3 T TENSOR REMARK 3 T11: 0.3924 T22: 0.2481 REMARK 3 T33: 0.2872 T12: 0.0218 REMARK 3 T13: 0.0233 T23: 0.0357 REMARK 3 L TENSOR REMARK 3 L11: 2.1597 L22: 3.4322 REMARK 3 L33: 3.2422 L12: -1.2321 REMARK 3 L13: 0.3486 L23: -0.4587 REMARK 3 S TENSOR REMARK 3 S11: 0.1634 S12: 0.3145 S13: -0.2632 REMARK 3 S21: -0.5332 S22: -0.1803 S23: -0.0452 REMARK 3 S31: 0.7226 S32: 0.0568 S33: 0.0329 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 102 THROUGH 176 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.7858 32.3476 -16.2189 REMARK 3 T TENSOR REMARK 3 T11: 0.2392 T22: 0.3720 REMARK 3 T33: 0.2425 T12: 0.0387 REMARK 3 T13: 0.0175 T23: 0.0787 REMARK 3 L TENSOR REMARK 3 L11: 1.6647 L22: 3.6410 REMARK 3 L33: 2.9270 L12: -0.9638 REMARK 3 L13: -0.4041 L23: -0.0947 REMARK 3 S TENSOR REMARK 3 S11: -0.0798 S12: -0.0477 S13: -0.0376 REMARK 3 S21: 0.2898 S22: 0.1633 S23: 0.2288 REMARK 3 S31: -0.1202 S32: -0.5153 S33: -0.0839 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 177 THROUGH 246 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.0825 39.2094 -15.4766 REMARK 3 T TENSOR REMARK 3 T11: 0.3785 T22: 0.3010 REMARK 3 T33: 0.2663 T12: 0.0758 REMARK 3 T13: 0.0020 T23: 0.0193 REMARK 3 L TENSOR REMARK 3 L11: 1.9486 L22: 3.0169 REMARK 3 L33: 0.4857 L12: -0.8791 REMARK 3 L13: -0.3188 L23: -0.9381 REMARK 3 S TENSOR REMARK 3 S11: -0.1218 S12: -0.1057 S13: 0.2470 REMARK 3 S21: 0.4185 S22: 0.1425 S23: -0.1365 REMARK 3 S31: -0.3744 S32: -0.2243 S33: -0.0218 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 247 THROUGH 280 ) REMARK 3 ORIGIN FOR THE GROUP (A): -18.0861 17.2751 -21.7202 REMARK 3 T TENSOR REMARK 3 T11: 0.3396 T22: 0.5567 REMARK 3 T33: 0.4639 T12: -0.1676 REMARK 3 T13: -0.0639 T23: 0.1052 REMARK 3 L TENSOR REMARK 3 L11: 3.2577 L22: 5.8762 REMARK 3 L33: 3.1303 L12: 0.5301 REMARK 3 L13: -0.4794 L23: 1.0713 REMARK 3 S TENSOR REMARK 3 S11: -0.0103 S12: 0.0983 S13: -0.5509 REMARK 3 S21: 0.0871 S22: 0.1302 S23: 0.5372 REMARK 3 S31: 0.5867 S32: -0.8077 S33: -0.1304 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'L' AND (RESID 101 THROUGH 111 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.7250 16.9498 -15.0452 REMARK 3 T TENSOR REMARK 3 T11: 0.4420 T22: 0.2636 REMARK 3 T33: 0.4212 T12: -0.0019 REMARK 3 T13: -0.0005 T23: 0.0867 REMARK 3 L TENSOR REMARK 3 L11: 4.1676 L22: 0.0869 REMARK 3 L33: 2.2091 L12: -0.5195 REMARK 3 L13: 0.7387 L23: -0.3192 REMARK 3 S TENSOR REMARK 3 S11: 0.0035 S12: -0.2469 S13: -0.6681 REMARK 3 S21: -0.0892 S22: -0.0014 S23: -0.3874 REMARK 3 S31: 0.2897 S32: 0.0525 S33: -0.0542 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'M' AND (RESID 201 THROUGH 212 ) REMARK 3 ORIGIN FOR THE GROUP (A): 5.7912 16.3746 -15.0344 REMARK 3 T TENSOR REMARK 3 T11: 0.2862 T22: 0.3493 REMARK 3 T33: 0.4448 T12: -0.0398 REMARK 3 T13: -0.0728 T23: 0.0928 REMARK 3 L TENSOR REMARK 3 L11: 3.4848 L22: 6.5339 REMARK 3 L33: 7.0109 L12: 0.1167 REMARK 3 L13: -1.1477 L23: -0.0421 REMARK 3 S TENSOR REMARK 3 S11: 0.1124 S12: -0.3833 S13: -0.3666 REMARK 3 S21: -0.1027 S22: -0.1326 S23: 0.4318 REMARK 3 S31: 0.7586 S32: -0.2655 S33: 0.1090 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5HNH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-JAN-16. REMARK 100 THE DEPOSITION ID IS D_1000217374. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00004 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35505 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.876 REMARK 200 RESOLUTION RANGE LOW (A) : 48.287 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 3.260 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.1400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.17 REMARK 200 R MERGE FOR SHELL (I) : 0.56000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.930 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 2VLA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.23 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.63 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: TACSIMATE, PEG 3350, PH 6.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 29.83300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 82.20100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.83300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 82.20100 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, L, M REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ASN A 281 REMARK 465 SER A 282 REMARK 465 HIS A 283 REMARK 465 LYS A 284 REMARK 465 SER A 285 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASN A 2 CG OD1 ND2 REMARK 470 LYS A 41 CG CD CE NZ REMARK 470 LYS A 46 CD CE NZ REMARK 470 ASP A 83 CG OD1 OD2 REMARK 470 ASP A 84 OD1 OD2 REMARK 470 GLU A 85 CG CD OE1 OE2 REMARK 470 GLU A 186 CG CD OE1 OE2 REMARK 470 ARG A 197 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 235 CD NE CZ NH1 NH2 REMARK 470 LYS A 267 CE NZ REMARK 470 VAL A 280 CG1 CG2 REMARK 470 DC M 212 N1 C2 O2 N3 C4 N4 C5 REMARK 470 DC M 212 C6 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 409 O HOH A 410 2.14 REMARK 500 O HOH L 214 O HOH M 317 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DC M 203 O3' DC M 203 C3' -0.054 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DC M 203 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DG M 206 O4' - C1' - N9 ANGL. DEV. = 2.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ILE A 72 -62.16 -105.90 REMARK 500 ASP A 84 -123.84 59.77 REMARK 500 GLN A 134 107.03 -164.49 REMARK 500 VAL A 164 -71.15 -116.98 REMARK 500 REMARK 500 REMARK: NULL DBREF 5HNH A 1 285 UNP A3FMN7 A3FMN7_BACPU 1 285 DBREF 5HNH L 101 111 PDB 5HNH 5HNH 101 111 DBREF 5HNH M 201 212 PDB 5HNH 5HNH 201 212 SEQADV 5HNH GLY A -2 UNP A3FMN7 EXPRESSION TAG SEQADV 5HNH SER A -1 UNP A3FMN7 EXPRESSION TAG SEQADV 5HNH HIS A 0 UNP A3FMN7 EXPRESSION TAG SEQRES 1 A 288 GLY SER HIS MET ASN TYR ASN PRO GLU GLU GLN PHE ARG SEQRES 2 A 288 CYS THR ILE ILE ARG GLY LYS ALA LYS ASN MET LEU ASP SEQRES 3 A 288 ASN LEU LEU PRO ALA TYR ALA ASN ILE ILE ASP ASP ILE SEQRES 4 A 288 CYS PRO CYS ASP LYS ALA SER PHE VAL LYS ASP PHE ASN SEQRES 5 A 288 ASN ARG LEU ILE GLU ILE LEU GLY GLU GLU THR THR LYS SEQRES 6 A 288 LYS THR LEU ASP ASN HIS ARG THR GLU ILE ALA GLY LYS SEQRES 7 A 288 LEU PHE GLY MET PHE TYR GLU ASP ASP GLU VAL ILE PHE SEQRES 8 A 288 PRO SER GLY ARG THR ASN LYS TYR ILE GLU ASP SER ASP SEQRES 9 A 288 GLN PRO ALA PHE PHE LYS ASP ILE CYS PHE LYS PHE GLN SEQRES 10 A 288 PHE PRO ASN GLY MET ASP LYS LEU ASP LYS VAL ILE GLU SEQRES 11 A 288 LYS VAL GLY ALA LYS ILE GLN ILE ARG GLN PHE PRO TYR SEQRES 12 A 288 ILE LEU GLN VAL LEU LEU THR ALA ASP ASN ASN ASN ILE SEQRES 13 A 288 GLN LEU SER LYS ASP ASP ILE ALA TYR TYR VAL LEU ASN SEQRES 14 A 288 SER LEU GLN VAL LEU GLN GLY LYS ILE LYS PRO ILE GLU SEQRES 15 A 288 VAL ILE GLU LYS ILE ILE GLU ASP ARG SER ASN ASP ILE SEQRES 16 A 288 THR LYS LYS VAL ARG HIS PRO GLY LYS GLU THR SER TYR SEQRES 17 A 288 SER MET GLN HIS ILE ARG GLU GLN LEU ASN TYR LEU GLU SEQRES 18 A 288 LEU ALA ASN LEU ILE ARG ILE ASP GLY ASN LEU VAL LYS SEQRES 19 A 288 LEU ASN TYR ARG GLU ALA GLU ASN ILE ASN TYR ILE ALA SEQRES 20 A 288 GLN PHE TRP GLY ASN LYS PRO GLU PHE ASN ALA TYR LYS SEQRES 21 A 288 TYR ASP PHE THR SER GLU ASP ASP LYS LYS SER PHE PHE SEQRES 22 A 288 LYS ASP TRP GLN GLN TYR TYR SER ASN VAL ASN SER HIS SEQRES 23 A 288 LYS SER SEQRES 1 L 11 DG YPE DA DC DC DC DG DT DG DG DA SEQRES 1 M 12 DT DC DC DA DC DG DG DG DT YPE YPE DC HET YPE L 102 29 HET YPE M 210 29 HET YPE M 211 29 HETNAM YPE 4-[8-(4-HYDROXYBUT-1-YN-1-YL)PYREN-1-YL]BUT-3-YN-1-YL HETNAM 2 YPE DIHYDROGEN PHOSPHATE FORMUL 2 YPE 3(C24 H19 O5 P) FORMUL 4 HOH *171(H2 O) HELIX 1 AA1 MET A 21 CYS A 37 1 17 HELIX 2 AA2 LYS A 41 GLY A 57 1 17 HELIX 3 AA3 THR A 61 ILE A 72 1 12 HELIX 4 AA4 SER A 90 SER A 100 1 11 HELIX 5 AA5 ASP A 101 PHE A 113 1 13 HELIX 6 AA6 LYS A 121 ALA A 131 1 11 HELIX 7 AA7 ARG A 136 ASN A 151 1 16 HELIX 8 AA8 LYS A 157 VAL A 164 1 8 HELIX 9 AA9 SER A 167 GLN A 172 1 6 HELIX 10 AB1 LYS A 176 ASN A 190 1 15 HELIX 11 AB2 GLU A 202 ALA A 220 1 19 HELIX 12 AB3 GLU A 236 GLN A 245 1 10 HELIX 13 AB4 ASN A 254 TYR A 258 5 5 HELIX 14 AB5 SER A 262 ASN A 279 1 18 SHEET 1 AA1 3 CYS A 39 ASP A 40 0 SHEET 2 AA1 3 VAL A 86 PRO A 89 -1 O ILE A 87 N CYS A 39 SHEET 3 AA1 3 PHE A 80 ASP A 83 -1 N TYR A 81 O PHE A 88 SHEET 1 AA2 3 LEU A 155 SER A 156 0 SHEET 2 AA2 3 LEU A 229 LEU A 232 -1 O VAL A 230 N LEU A 155 SHEET 3 AA2 3 ILE A 223 ASP A 226 -1 N ARG A 224 O LYS A 231 LINK O3' DG L 101 PBA YPE L 102 1555 1555 1.59 LINK OAZ YPE L 102 P DA L 103 1555 1555 1.60 LINK O3' DT M 209 PBA YPE M 210 1555 1555 1.59 LINK OAZ YPE M 210 PBA YPE M 211 1555 1555 1.59 LINK OAZ YPE M 211 P DC M 212 1555 1555 1.59 CISPEP 1 CYS A 37 PRO A 38 0 1.88 CISPEP 2 PHE A 115 PRO A 116 0 -6.88 CRYST1 59.666 164.402 44.033 90.00 90.00 90.00 P 21 21 2 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.016760 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006083 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022710 0.00000